|
| Status |
Public on Jun 10, 2020 |
| Title |
ERRg ChIP-Seq in WT2 |
| Sample type |
SRA |
| |
|
| Source name |
Wild type hiPSC-CMs
|
| Organism |
Homo sapiens |
| Characteristics |
genotype: wild type
cell type: hiPSC-derived cardioyocytes
day: D22
chip antibody: ERRg (generated with collaborator)
|
| Growth protocol |
hiPSC were cultured in TeSR-E8 (StemCell Technologies) and differentiated toward cardiomyocytes with the method published by Dr. Joseph Wu (Nat Methods. 2014 Aug;11(8):855-60. PMID: 24930130). ERRg KO iPSCs were generated by pSpCas9n(BB)-2A-Puro plasmids (PX462, Addgene plasmid # 48141) containing distinct sgRNAs against ERRg.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and ERRg-DNA complexes were isolated with the antibody.
Libraries were prepared according to NuGen The Ovation® Ultralow Library System V2 (Part# 0801-0303) with 2 mg DNA sample.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
ChIP-seq reads were aligned to the hg38 genome assembly using Bowtie2
Peaks were called using findPeaks command in the Homer package
Genome_build: hg38
|
| |
|
| Submission date |
Apr 27, 2018 |
| Last update date |
Jun 10, 2020 |
| Contact name |
Tomoya Sakamoto |
| Organization name |
University of Pennsylvania
|
| Department |
Cardiovascular Institute
|
| Lab |
Daniel Kelly lab
|
| Street address |
Smilow Center for Translational Research 11th FL (Room 11-172) 3400 Civic Center Blvd Bldg 421
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE113760 |
Genome-wide estrogen-related receptor gamma (ERRg) occupancy in human iPS cell-derived cardiomyocytes (hiPSC-CMs) |
| GSE113784 |
Estrogen-related Receptor Signaling Coordinately Controls Cardiac Energy Metabolic and Structural Maturation |
|
| Relations |
| BioSample |
SAMN08993913 |
| SRA |
SRX4003760 |
